NEWS
scFastDE 0.99.3
Bug fixes
- Improve overall stability.
scFastDE 0.99.2
Bug fixes
- Improve overall stability.
scFastDE 0.99.1
Bug fixes
- Removed
inst/CITATION file lacking a DOI (Bioconductor BiocCheck WARNING).
- Updated R version dependency from 4.5.0 to 4.6.0 to match Bioconductor 3.23.
scFastDE 0.99.0
New features
- Initial release submitted to Bioconductor.
filterSparseDonors(): remove donors below a minimum cell count threshold
per cell type before pseudo-bulk aggregation.
fastPseudobulk(): build donor-weighted pseudo-bulk profiles from a
SingleCellExperiment using vectorised sparse matrix operations. Supports
aggregation per donor (unpaired) or per donor × condition pair (paired).
fastDE(): run vectorised differential expression across all genes
simultaneously using limma-voom with donor cell-count weights.
Automatically detects paired designs (same donors in multiple conditions)
and uses a ~ 0 + condition + donor blocking model.
plotDEResults(): volcano plot with significance colouring and
top-gene labelling.
FDEResult S4 class for structured storage of DE results.